data_8TDR # _model_server_result.job_id Do7G15KLDXkLN-jizvGRQA _model_server_result.datetime_utc '2024-11-23 11:09:07' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 8tdr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":1001}' # _entry.id 8TDR # _exptl.entry_id 8TDR _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 384.411 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYL-L-HOMOCYSTEINE _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 120 _cell.entry_id 8TDR _cell.length_a 179.429 _cell.length_b 179.429 _cell.length_c 108.065 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8TDR _symmetry.cell_setting ? _symmetry.Int_Tables_number 143 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? tetrameric 4 author_defined_assembly 1 ? tetrameric 4 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,D,F,I,J 1 1 C,E,G,H,K,L 2 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 I N N ? 2 J N N ? 2 K N N ? 2 L N N # _chem_comp.formula 'C14 H20 N6 O5 S' _chem_comp.formula_weight 384.411 _chem_comp.id SAH _chem_comp.mon_nstd_flag . _chem_comp.name S-ADENOSYL-L-HOMOCYSTEINE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag N CA SAH sing 275 n n N HN1 SAH sing 276 n n N HN2 SAH sing 277 n n CA CB SAH sing 278 n n CA C SAH sing 279 n n CA HA SAH sing 280 n n CB CG SAH sing 281 n n CB HB1 SAH sing 282 n n CB HB2 SAH sing 283 n n CG SD SAH sing 284 n n CG HG1 SAH sing 285 n n CG HG2 SAH sing 286 n n SD C5' SAH sing 287 n n C O SAH doub 288 n n C OXT SAH sing 289 n n OXT HXT SAH sing 290 n n C5' C4' SAH sing 291 n n C5' "H5'1" SAH sing 292 n n C5' "H5'2" SAH sing 293 n n C4' O4' SAH sing 294 n n C4' C3' SAH sing 295 n n C4' H4' SAH sing 296 n n O4' C1' SAH sing 297 n n C3' O3' SAH sing 298 n n C3' C2' SAH sing 299 n n C3' H3' SAH sing 300 n n O3' HO3' SAH sing 301 n n C2' O2' SAH sing 302 n n C2' C1' SAH sing 303 n n C2' H2' SAH sing 304 n n O2' HO2' SAH sing 305 n n C1' N9 SAH sing 306 n n C1' H1' SAH sing 307 n n N9 C8 SAH sing 308 n y N9 C4 SAH sing 309 n y C8 N7 SAH doub 310 n y C8 H8 SAH sing 311 n n N7 C5 SAH sing 312 n y C5 C6 SAH sing 313 n y C5 C4 SAH doub 314 n y C6 N6 SAH sing 315 n n C6 N1 SAH doub 316 n y N6 HN61 SAH sing 317 n n N6 HN62 SAH sing 318 n n N1 C2 SAH sing 319 n y C2 N3 SAH doub 320 n y C2 H2 SAH sing 321 n n N3 C4 SAH sing 322 n y # _atom_sites.entry_id 8TDR _atom_sites.fract_transf_matrix[1][1] 0.005573 _atom_sites.fract_transf_matrix[1][2] 0.003218 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006435 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.009254 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code I 2 SAH A 1 1001 1001 SAH SAH . J 2 SAH B 1 1001 1001 SAH SAH . K 2 SAH C 1 1001 1001 SAH SAH . L 2 SAH D 1 1001 1001 SAH SAH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 N N SAH . . . J 2 22.572 -37.06 10.483 1 72.52 ? N SAH 1001 B 1 HETATM 2 C CA SAH . . . J 2 23.478 -36.092 11.089 1 74.23 ? CA SAH 1001 B 1 HETATM 3 C CB SAH . . . J 2 24.894 -36.656 11.134 1 68.2 ? CB SAH 1001 B 1 HETATM 4 C CG SAH . . . J 2 25.051 -38.041 10.516 1 61.81 ? CG SAH 1001 B 1 HETATM 5 S SD SAH . . . J 2 26.788 -38.49 10.277 1 91.05 ? SD SAH 1001 B 1 HETATM 6 C C SAH . . . J 2 23.457 -34.755 10.352 1 74.27 ? C SAH 1001 B 1 HETATM 7 O O SAH . . . J 2 22.702 -34.57 9.397 1 76.32 ? O SAH 1001 B 1 HETATM 8 O OXT SAH . . . J 2 24.185 -33.823 10.7 1 63.61 ? OXT SAH 1001 B 1 HETATM 9 C C5' SAH . . . J 2 26.82 -39.477 11.795 1 78.16 ? C5' SAH 1001 B 1 HETATM 10 C C4' SAH . . . J 2 27.367 -38.702 12.989 1 79.36 ? C4' SAH 1001 B 1 HETATM 11 O O4' SAH . . . J 2 27.374 -39.52 14.142 1 83.19 ? O4' SAH 1001 B 1 HETATM 12 C C3' SAH . . . J 2 28.799 -38.234 12.785 1 88.14 ? C3' SAH 1001 B 1 HETATM 13 O O3' SAH . . . J 2 28.825 -36.832 12.654 1 96.54 ? O3' SAH 1001 B 1 HETATM 14 C C2' SAH . . . J 2 29.539 -38.638 14.043 1 78.17 ? C2' SAH 1001 B 1 HETATM 15 O O2' SAH . . . J 2 30.17 -37.517 14.616 1 83.07 ? O2' SAH 1001 B 1 HETATM 16 C C1' SAH . . . J 2 28.458 -39.163 14.974 1 79.88 ? C1' SAH 1001 B 1 HETATM 17 N N9 SAH . . . J 2 28.935 -40.315 15.763 1 77.3 ? N9 SAH 1001 B 1 HETATM 18 C C8 SAH . . . J 2 29.897 -41.216 15.391 1 87.86 ? C8 SAH 1001 B 1 HETATM 19 N N7 SAH . . . J 2 30.051 -42.118 16.388 1 80.84 ? N7 SAH 1001 B 1 HETATM 20 C C5 SAH . . . J 2 29.202 -41.807 17.391 1 67.62 ? C5 SAH 1001 B 1 HETATM 21 C C6 SAH . . . J 2 28.957 -42.397 18.625 1 67.03 ? C6 SAH 1001 B 1 HETATM 22 N N6 SAH . . . J 2 29.631 -43.483 18.994 1 63.29 ? N6 SAH 1001 B 1 HETATM 23 N N1 SAH . . . J 2 28.01 -41.849 19.465 1 67.46 ? N1 SAH 1001 B 1 HETATM 24 C C2 SAH . . . J 2 27.315 -40.723 19.074 1 66.4 ? C2 SAH 1001 B 1 HETATM 25 N N3 SAH . . . J 2 27.565 -40.143 17.846 1 65.91 ? N3 SAH 1001 B 1 HETATM 26 C C4 SAH . . . J 2 28.494 -40.675 17.015 1 66.87 ? C4 SAH 1001 B 1 # _model_server_stats.io_time_ms 150 _model_server_stats.parse_time_ms 40 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 26 #